Clustering avec le modèle iid

Avec le modèle iid nous obtenons les 5 collections suivantes:

collection_id net_id
1 arroyo1982_1+arroyo1982_2+arroyo3
1 eberling1999
1 kato1990
1 petanidou1991
1 Junker2013
1 bartomeus2008
1 Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)
1 Benadi2013_4(1700m)+Benadi2013_5(1800m)
1 Struck1994
1 Kato2000
1 Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr
1 Baldock2011_TB+Baldock2011_JN
1 Dattilo2016
1 Devoto2005_PP+Devoto2005_AP
1 Devoto2005_VT
1 Devoto2005_LL+Devoto2005_CT
1 Freitas2006
1 Gibson2006_TA2
1 Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty
1 MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant
1 Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat
1 Pinheiro2008
1 Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha
1 Kato1993
1 KatoMiura1996
1 Kakutani1990
1 Inoue1990
1 Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3
1 Souza_cerrado
1 Souza_chaco
1 Souza_pantanal
1 Souza_vereda
1 Adedoja2019
1 Oleques2019
1 Baldock2019_Bristol
1 Baldock2019_Edinburgh
1 Baldock2019_Leeds
1 Baldock2019_Reading
collection_id net_id
2 dupont2003
2 herrera1988
2 inouye1988
2 medan2002ld
2 medan2002rb
2 ramirez1992
2 ramirez1989
2 Burkle2013
2 Olito-Fox2014
2 Benadi2013_3(1340m)
2 Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D
2 Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D
2 Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D
2 Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2
2 Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG
2 Devoto2005_LQ
2 Devoto2005_LT+Devoto2005_LH
2 LemusJimenez2003
2 Lundgren2005
2 Marrero2013
2 Trojelsgaard2015_La Gomera
2 Trojelsgaard2015_Gran Canaria
2 Zackenberg
2 Yoshihara2008
2 Fragoso_RA1+Fragoso_RD2
2 PopicThesis
2 Pornon2017
2 Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10
2 Orford_B6+Orford_B7+Orford_B8+Orford_B9
2 Blumel2016
2 Kantsa2018
2 Bennett2018
2 Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone
2 CordenizPicanco2018_NatVeg
2 CordenizPicanco2018_ExoFor
2 Benadi2018
2 Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma
2 Jolls2019
2 Traveset2013_Fernandina
2 Traveset2013_Pinta
2 Traveset2013_Santiago
2 Traveset2013_SantaCruz
2 Traveset2013_SanCristobal
2 Simanonok2014
2 Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8
collection_id net_id
3 small1976
collection_id net_id
4 smith-ramirez2005
4 Weiner2011
4 Kaiser_control+Kaiser_restored
4 Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan
4 Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres
4 Fang2012
4 Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D
4 Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6
4 Dupont2009_IsenBjerg+Dupont2009_Other
4 Gibson2006_GA1
4 Gibson2006_TA1
4 LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA
4 Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia
4 Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich
4 Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS
4 Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig
4 Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B
4 Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17
4 Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub
4 Neli2014
collection_id net_id
5 olensen2002aig
5 olensen2002flo
5 vazquez2002
5 Shay2016
5 Gibson2006_GA2
5 Gibson2006_SG
5 Trojelsgaard2015_El Hierro
5 Trojelsgaard2015_Fuerteventura
5 Trojelsgaard2015_Western Sahara
5 Robinson2018
5 CordenizPicanco2018_NatFor
5 CordenizPicanco2018_SemiPast
5 CordenizPicanco2018_IntPast
5 Biella2019
5 Nel2017
5 Villalobos2019
5 LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre
5 Ferrero2013
5 Sritongchuay2019_near+Sritongchuay2019_far

Une fois le modèle de collection appliqué nous obtenons les structures suivantes:

##
## Pour la collection 1 du modèle *iid*

##  [1] "arroyo1982_1+arroyo1982_2+arroyo3"
##  [2] "eberling1999"
##  [3] "kato1990"
##  [4] "petanidou1991"
##  [5] "Junker2013"
##  [6] "bartomeus2008"
##  [7] "Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)"
##  [8] "Benadi2013_4(1700m)+Benadi2013_5(1800m)"
##  [9] "Struck1994"
## [10] "Kato2000"
## [11] "Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr"
## [12] "Baldock2011_TB+Baldock2011_JN"
## [13] "Dattilo2016"
## [14] "Devoto2005_PP+Devoto2005_AP"
## [15] "Devoto2005_VT"
## [16] "Devoto2005_LL+Devoto2005_CT"
## [17] "Freitas2006"
## [18] "Gibson2006_TA2"
## [19] "Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty"
## [20] "MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant"
## [21] "Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat"
## [22] "Pinheiro2008"
## [23] "Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha"
## [24] "Kato1993"
## [25] "KatoMiura1996"
## [26] "Kakutani1990"
## [27] "Inoue1990"
## [28] "Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3"
## [29] "Souza_cerrado"
## [30] "Souza_chaco"
## [31] "Souza_pantanal"
## [32] "Souza_vereda"
## [33] "Adedoja2019"
## [34] "Oleques2019"
## [35] "Baldock2019_Bristol"
## [36] "Baldock2019_Edinburgh"
## [37] "Baldock2019_Leeds"
## [38] "Baldock2019_Reading"
##
## Pour la collection 2 du modèle *iid*

##  [1] "dupont2003"
##  [2] "herrera1988"
##  [3] "inouye1988"
##  [4] "medan2002ld"
##  [5] "medan2002rb"
##  [6] "ramirez1992"
##  [7] "ramirez1989"
##  [8] "Burkle2013"
##  [9] "Olito-Fox2014"
## [10] "Benadi2013_3(1340m)"
## [11] "Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D"
## [12] "Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D"
## [13] "Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D"
## [14] "Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2"
## [15] "Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG"
## [16] "Devoto2005_LQ"
## [17] "Devoto2005_LT+Devoto2005_LH"
## [18] "LemusJimenez2003"
## [19] "Lundgren2005"
## [20] "Marrero2013"
## [21] "Trojelsgaard2015_La Gomera"
## [22] "Trojelsgaard2015_Gran Canaria"
## [23] "Zackenberg"
## [24] "Yoshihara2008"
## [25] "Fragoso_RA1+Fragoso_RD2"
## [26] "PopicThesis"
## [27] "Pornon2017"
## [28] "Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10"
## [29] "Orford_B6+Orford_B7+Orford_B8+Orford_B9"
## [30] "Blumel2016"
## [31] "Kantsa2018"
## [32] "Bennett2018"
## [33] "Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone"
## [34] "CordenizPicanco2018_NatVeg"
## [35] "CordenizPicanco2018_ExoFor"
## [36] "Benadi2018"
## [37] "Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma"
## [38] "Jolls2019"
## [39] "Traveset2013_Fernandina"
## [40] "Traveset2013_Pinta"
## [41] "Traveset2013_Santiago"
## [42] "Traveset2013_SantaCruz"
## [43] "Traveset2013_SanCristobal"
## [44] "Simanonok2014"
## [45] "Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8"
##
## Pour la collection 3 du modèle *iid*

## [1] "small1976"
##
## Pour la collection 4 du modèle *iid*

##  [1] "smith-ramirez2005"
##  [2] "Weiner2011"
##  [3] "Kaiser_control+Kaiser_restored"
##  [4] "Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan"
##  [5] "Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres"
##  [6] "Fang2012"
##  [7] "Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D"
##  [8] "Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6"
##  [9] "Dupont2009_IsenBjerg+Dupont2009_Other"
## [10] "Gibson2006_GA1"
## [11] "Gibson2006_TA1"
## [12] "LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA"
## [13] "Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia"
## [14] "Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich"
## [15] "Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS"
## [16] "Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig"
## [17] "Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B"
## [18] "Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17"
## [19] "Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub"
## [20] "Neli2014"
##
## Pour la collection 5 du modèle *iid*

##  [1] "olensen2002aig"
##  [2] "olensen2002flo"
##  [3] "vazquez2002"
##  [4] "Shay2016"
##  [5] "Gibson2006_GA2"
##  [6] "Gibson2006_SG"
##  [7] "Trojelsgaard2015_El Hierro"
##  [8] "Trojelsgaard2015_Fuerteventura"
##  [9] "Trojelsgaard2015_Western Sahara"
## [10] "Robinson2018"
## [11] "CordenizPicanco2018_NatFor"
## [12] "CordenizPicanco2018_SemiPast"
## [13] "CordenizPicanco2018_IntPast"
## [14] "Biella2019"
## [15] "Nel2017"
## [16] "Villalobos2019"
## [17] "LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre"
## [18] "Ferrero2013"
## [19] "Sritongchuay2019_near+Sritongchuay2019_far"

Et voici donc les valeurs numériques pour les \(\alpha\) (paramètres de connectivité).

Pour la collection 1 : \[\begin{bmatrix} 1 &0.83 &0.43 &0.73 &0.2 &0.5 &0.05 &0.18 \\1 &0.67 &0.36 &0.51 &0.22 &0.3 &0.05 &0.07 \\1 &0.53 &1 &0.01 &0.02 &0.89 &0 &0 \\0.97 &0.45 &0.62 &0.18 &0.47 &0.06 &0.2 &0.03 \\0.76 &0.46 &0.1 &0.27 &0.1 &0.14 &0.02 &0.03 \\0.96 &0.2 &0.37 &0.03 &0.24 &0.01 &0.09 &0.01 \\0.54 &0.28 &0.04 &0.12 &0.03 &0.05 &0.01 &0.01 \\0.69 &0.1 &0.3 &0.02 &0.06 &0.01 &0.03 &0 \\ \end{bmatrix}\] Pour la collection 2 : \[\begin{bmatrix} 0.84 &0.69 &0.13 &0.32 \\0.71 &0.49 &0.11 &0.14 \\0.54 &0.26 &0.14 &0.05 \\0.26 &0.07 &0.14 &0.01 \\ \end{bmatrix}\] Pour la collection 3 : \[\begin{bmatrix} 0.87 &0.33 \\0.11 &0.09 \\ \end{bmatrix}\] Pour la collection 4 : \[\begin{bmatrix} 0.96 &0.83 &0.96 &0.39 &0.8 &0.16 &0.66 \\0.98 &0.86 &0.83 &0.51 &0.56 &0.19 &0.09 \\0.8 &0.46 &0.74 &0.12 &0.4 &0.05 &0.13 \\0.89 &0.69 &0.44 &0.35 &0.15 &0.07 &0.01 \\0.7 &0.29 &0.35 &0.03 &0.15 &0.01 &0.03 \\0.66 &0.43 &0.1 &0.17 &0.03 &0.02 &0 \\0.32 &0.12 &0.02 &0.04 &0 &0 &0 \\ \end{bmatrix}\] Pour la collection 5 : \[\begin{bmatrix} 0.71 &0.9 &0.57 &0.83 \\0.74 &0.22 &0.7 &0.33 \\0.09 &0.44 &0.07 &0.02 \\ \end{bmatrix}\]

Répartition dans les clusters selon la taxonomie

## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
Pollinators repartition for the iid model regarding taxonomy

Pollinators repartition for the iid model regarding taxonomy

## Warning: Removed 7 rows containing missing values (`geom_bar()`).
Pollinators repartition for the iid model regarding taxonomy

Pollinators repartition for the iid model regarding taxonomy

Plants repartition for the iid model regarding taxonomy

Plants repartition for the iid model regarding taxonomy

## Warning: Removed 63 rows containing missing values (`geom_bar()`).
Plants repartition for the iid model regarding taxonomy

Plants repartition for the iid model regarding taxonomy

Clustering avec le modèle pi

Avec le modèle pi nous obtenons les 2 collections suivantes:

collection_id net_id
1 arroyo1982_1+arroyo1982_2+arroyo3
1 eberling1999
1 inouye1988
1 kato1990
1 ramirez1992
1 petanidou1991
1 ramirez1989
1 smith-ramirez2005
1 Junker2013
1 Kaiser_control+Kaiser_restored
1 bartomeus2008
1 Olito-Fox2014
1 Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)
1 Benadi2013_3(1340m)
1 Benadi2013_4(1700m)+Benadi2013_5(1800m)
1 Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres
1 Fang2012
1 Shay2016
1 Struck1994
1 Kato2000
1 Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D
1 Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D
1 Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D
1 Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr
1 Baldock2011_TB+Baldock2011_JN
1 Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2
1 Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG
1 Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6
1 Dattilo2016
1 Devoto2005_PP+Devoto2005_AP
1 Devoto2005_VT
1 Devoto2005_LL+Devoto2005_CT
1 Dupont2009_IsenBjerg+Dupont2009_Other
1 Freitas2006
1 Gibson2006_TA1
1 Gibson2006_TA2
1 Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty
1 LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA
1 LemusJimenez2003
1 Marrero2013
1 MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant
1 Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat
1 Pinheiro2008
1 Trojelsgaard2015_La Gomera
1 Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia
1 Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich
1 Zackenberg
1 Yoshihara2008
1 Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha
1 Kato1993
1 KatoMiura1996
1 Kakutani1990
1 Inoue1990
1 Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3
1 PopicThesis
1 Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS
1 Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig
1 Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10
1 Orford_B6+Orford_B7+Orford_B8+Orford_B9
1 Blumel2016
1 Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B
1 Souza_cerrado
1 Souza_chaco
1 Souza_pantanal
1 Souza_vereda
1 Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17
1 Bennett2018
1 Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone
1 Adedoja2019
1 CordenizPicanco2018_NatVeg
1 Benadi2018
1 Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma
1 Oleques2019
1 Jolls2019
1 Traveset2013_Fernandina
1 Traveset2013_Santiago
1 Traveset2013_SantaCruz
1 Traveset2013_SanCristobal
1 Simanonok2014
1 Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8
1 Baldock2019_Bristol
1 Baldock2019_Edinburgh
1 Baldock2019_Leeds
1 Baldock2019_Reading
collection_id net_id
2 dupont2003
2 herrera1988
2 medan2002ld
2 medan2002rb
2 olensen2002aig
2 olensen2002flo
2 small1976
2 vazquez2002
2 Burkle2013
2 Weiner2011
2 Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan
2 Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D
2 Devoto2005_LQ
2 Devoto2005_LT+Devoto2005_LH
2 Gibson2006_GA1
2 Gibson2006_GA2
2 Gibson2006_SG
2 Lundgren2005
2 Trojelsgaard2015_El Hierro
2 Trojelsgaard2015_Gran Canaria
2 Trojelsgaard2015_Fuerteventura
2 Trojelsgaard2015_Western Sahara
2 Fragoso_RA1+Fragoso_RD2
2 Pornon2017
2 Kantsa2018
2 Robinson2018
2 CordenizPicanco2018_NatFor
2 CordenizPicanco2018_ExoFor
2 CordenizPicanco2018_SemiPast
2 CordenizPicanco2018_IntPast
2 Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub
2 Biella2019
2 Nel2017
2 Villalobos2019
2 LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre
2 Traveset2013_Pinta
2 Ferrero2013
2 Neli2014
2 Sritongchuay2019_near+Sritongchuay2019_far

Une fois le modèle de collection appliqué nous obtenons les structures suivantes:

##
## Pour la collection 1 du modèle *pi*
## Warning in RColorBrewer::brewer.pal(n, pal): n too large, allowed maximum for palette Set2 is 8
## Returning the palette you asked for with that many colors

##  [1] "arroyo1982_1+arroyo1982_2+arroyo3"
##  [2] "eberling1999"
##  [3] "inouye1988"
##  [4] "kato1990"
##  [5] "ramirez1992"
##  [6] "petanidou1991"
##  [7] "ramirez1989"
##  [8] "smith-ramirez2005"
##  [9] "Junker2013"
## [10] "Kaiser_control+Kaiser_restored"
## [11] "bartomeus2008"
## [12] "Olito-Fox2014"
## [13] "Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)"
## [14] "Benadi2013_3(1340m)"
## [15] "Benadi2013_4(1700m)+Benadi2013_5(1800m)"
## [16] "Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres"
## [17] "Fang2012"
## [18] "Shay2016"
## [19] "Struck1994"
## [20] "Kato2000"
## [21] "Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D"
## [22] "Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D"
## [23] "Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D"
## [24] "Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr"
## [25] "Baldock2011_TB+Baldock2011_JN"
## [26] "Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2"
## [27] "Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG"
## [28] "Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6"
## [29] "Dattilo2016"
## [30] "Devoto2005_PP+Devoto2005_AP"
## [31] "Devoto2005_VT"
## [32] "Devoto2005_LL+Devoto2005_CT"
## [33] "Dupont2009_IsenBjerg+Dupont2009_Other"
## [34] "Freitas2006"
## [35] "Gibson2006_TA1"
## [36] "Gibson2006_TA2"
## [37] "Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty"
## [38] "LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA"
## [39] "LemusJimenez2003"
## [40] "Marrero2013"
## [41] "MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant"
## [42] "Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat"
## [43] "Pinheiro2008"
## [44] "Trojelsgaard2015_La Gomera"
## [45] "Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia"
## [46] "Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich"
## [47] "Zackenberg"
## [48] "Yoshihara2008"
## [49] "Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha"
## [50] "Kato1993"
## [51] "KatoMiura1996"
## [52] "Kakutani1990"
## [53] "Inoue1990"
## [54] "Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3"
## [55] "PopicThesis"
## [56] "Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS"
## [57] "Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig"
## [58] "Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10"
## [59] "Orford_B6+Orford_B7+Orford_B8+Orford_B9"
## [60] "Blumel2016"
## [61] "Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B"
## [62] "Souza_cerrado"
## [63] "Souza_chaco"
## [64] "Souza_pantanal"
## [65] "Souza_vereda"
## [66] "Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17"
## [67] "Bennett2018"
## [68] "Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone"
## [69] "Adedoja2019"
## [70] "CordenizPicanco2018_NatVeg"
## [71] "Benadi2018"
## [72] "Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma"
## [73] "Oleques2019"
## [74] "Jolls2019"
## [75] "Traveset2013_Fernandina"
## [76] "Traveset2013_Santiago"
## [77] "Traveset2013_SantaCruz"
## [78] "Traveset2013_SanCristobal"
## [79] "Simanonok2014"
## [80] "Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8"
## [81] "Baldock2019_Bristol"
## [82] "Baldock2019_Edinburgh"
## [83] "Baldock2019_Leeds"
## [84] "Baldock2019_Reading"
##
## Pour la collection 2 du modèle *pi*

##  [1] "dupont2003"
##  [2] "herrera1988"
##  [3] "medan2002ld"
##  [4] "medan2002rb"
##  [5] "olensen2002aig"
##  [6] "olensen2002flo"
##  [7] "small1976"
##  [8] "vazquez2002"
##  [9] "Burkle2013"
## [10] "Weiner2011"
## [11] "Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan"
## [12] "Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D"
## [13] "Devoto2005_LQ"
## [14] "Devoto2005_LT+Devoto2005_LH"
## [15] "Gibson2006_GA1"
## [16] "Gibson2006_GA2"
## [17] "Gibson2006_SG"
## [18] "Lundgren2005"
## [19] "Trojelsgaard2015_El Hierro"
## [20] "Trojelsgaard2015_Gran Canaria"
## [21] "Trojelsgaard2015_Fuerteventura"
## [22] "Trojelsgaard2015_Western Sahara"
## [23] "Fragoso_RA1+Fragoso_RD2"
## [24] "Pornon2017"
## [25] "Kantsa2018"
## [26] "Robinson2018"
## [27] "CordenizPicanco2018_NatFor"
## [28] "CordenizPicanco2018_ExoFor"
## [29] "CordenizPicanco2018_SemiPast"
## [30] "CordenizPicanco2018_IntPast"
## [31] "Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub"
## [32] "Biella2019"
## [33] "Nel2017"
## [34] "Villalobos2019"
## [35] "LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre"
## [36] "Traveset2013_Pinta"
## [37] "Ferrero2013"
## [38] "Neli2014"
## [39] "Sritongchuay2019_near+Sritongchuay2019_far"

Et voici donc les valeurs numériques pour les \(\alpha\) (paramètres de connectivité).

Pour la collection 1 : \[\begin{bmatrix} 1 &0.9 &0.92 &0.55 &0.75 &0.57 &0.17 \\0.1 &0.21 &0.81 &0.86 &0.7 &0.4 &0.54 \\0.38 &0.12 &0.03 &0.09 &0.92 &0.65 &0.17 \\0.76 &0.5 &0.1 &0.33 &0.17 &0.04 &0.65 \\0.71 &0.5 &0.18 &0.28 &0.19 &0.04 &0.01 \\0.03 &0.89 &0.4 &0.05 &0.53 &0.2 &0.03 \\0.22 &0.07 &0.01 &0.22 &0.35 &0.21 &0.06 \\0.11 &0.07 &0.01 &0.01 &0.01 &0.6 &0.15 \\0.02 &0.21 &0.06 &0.01 &0.06 &0.01 &0 \\ \end{bmatrix}\] Pour la collection 2 : \[\begin{bmatrix} 0.84 &0.99 &0.66 &0.99 &0.38 &0.79 \\0.79 &0.5 &0.01 &0.19 &0.46 &0.51 \\0.15 &0.02 &0.08 &0.83 &0.22 &0.44 \\0 &0.05 &0.49 &0.07 &0.15 &0 \\0.01 &0.16 &0 &0.04 &0 &0 \\ \end{bmatrix}\]

Répartition dans les clusters selon la taxonomie

## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
Pollinators repartition for the pi model regarding taxonomy

Pollinators repartition for the pi model regarding taxonomy

Pollinators repartition for the pi model regarding taxonomy

Pollinators repartition for the pi model regarding taxonomy

Plants repartition for the pi model regarding taxonomy

Plants repartition for the pi model regarding taxonomy

## Warning: Removed 45 rows containing missing values (`geom_bar()`).
Plants repartition for the pi model regarding taxonomy

Plants repartition for the pi model regarding taxonomy

Clustering avec le modèle rho

Avec le modèle rho nous obtenons les 83 collections suivantes:

x
arroyo1982_1+arroyo1982_2+arroyo3
dupont2003
eberling1999
herrera1988
inouye1988
kato1990
medan2002ld
medan2002rb
olensen2002aig
olensen2002flo
ramirez1992
small1976
vazquez2002
petanidou1991
ramirez1989
smith-ramirez2005
Burkle2013
Junker2013
Weiner2011
Kaiser_control+Kaiser_restored
bartomeus2008
Olito-Fox2014
Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan
Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)
Benadi2013_3(1340m)
Benadi2013_4(1700m)+Benadi2013_5(1800m)
Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres
Fang2012
Shay2016
Struck1994
Kato2000
Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D
Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D
Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D
Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D
Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr
Baldock2011_TB+Baldock2011_JN
Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2
Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG
Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6
Dattilo2016
Devoto2005_LQ
Devoto2005_PP+Devoto2005_AP
Devoto2005_LT+Devoto2005_LH
Devoto2005_VT
Devoto2005_LL+Devoto2005_CT
Dupont2009_IsenBjerg+Dupont2009_Other
Freitas2006
Gibson2006_GA1
Gibson2006_GA2
Gibson2006_SG
Gibson2006_TA1
Gibson2006_TA2
Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty
LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA
LemusJimenez2003
Lundgren2005
Marrero2013
MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant
Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat
Pinheiro2008
Trojelsgaard2015_El Hierro
Trojelsgaard2015_La Gomera
Trojelsgaard2015_Gran Canaria
Trojelsgaard2015_Fuerteventura
Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia
Trojelsgaard2015_Western Sahara
Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich
Zackenberg
Yoshihara2008
Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha
Kato1993
KatoMiura1996
Kakutani1990
Inoue1990
Fragoso_RA1+Fragoso_RD2
Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3
PopicThesis
Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS
Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig
Pornon2017
Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10
Orford_B6+Orford_B7+Orford_B8+Orford_B9
Blumel2016
Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B
Kantsa2018
Souza_cerrado
Souza_chaco
Souza_pantanal
Souza_vereda
Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17
Robinson2018
Bennett2018
Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone
Adedoja2019
CordenizPicanco2018_NatFor
CordenizPicanco2018_NatVeg
CordenizPicanco2018_ExoFor
CordenizPicanco2018_SemiPast
CordenizPicanco2018_IntPast
Benadi2018
Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma
Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub
Oleques2019
Biella2019
Jolls2019
Nel2017
Villalobos2019
LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre
Traveset2013_Fernandina
Traveset2013_Pinta
Traveset2013_Santiago
Traveset2013_SantaCruz
Traveset2013_SanCristobal
Ferrero2013
Simanonok2014
Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8
Neli2014
Sritongchuay2019_near+Sritongchuay2019_far
Baldock2019_Bristol
Baldock2019_Edinburgh
Baldock2019_Leeds
Baldock2019_Reading

Une fois le modèle de collection appliqué nous obtenons les structures suivantes:

##
## Pour la collection 1 du modèle *rho*

##   [1] "arroyo1982_1+arroyo1982_2+arroyo3"
##   [2] "dupont2003"
##   [3] "eberling1999"
##   [4] "herrera1988"
##   [5] "inouye1988"
##   [6] "kato1990"
##   [7] "medan2002ld"
##   [8] "medan2002rb"
##   [9] "olensen2002aig"
##  [10] "olensen2002flo"
##  [11] "ramirez1992"
##  [12] "small1976"
##  [13] "vazquez2002"
##  [14] "petanidou1991"
##  [15] "ramirez1989"
##  [16] "smith-ramirez2005"
##  [17] "Burkle2013"
##  [18] "Junker2013"
##  [19] "Weiner2011"
##  [20] "Kaiser_control+Kaiser_restored"
##  [21] "bartomeus2008"
##  [22] "Olito-Fox2014"
##  [23] "Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan"
##  [24] "Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)"
##  [25] "Benadi2013_3(1340m)"
##  [26] "Benadi2013_4(1700m)+Benadi2013_5(1800m)"
##  [27] "Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres"
##  [28] "Fang2012"
##  [29] "Shay2016"
##  [30] "Struck1994"
##  [31] "Kato2000"
##  [32] "Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D"
##  [33] "Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D"
##  [34] "Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D"
##  [35] "Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D"
##  [36] "Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr"
##  [37] "Baldock2011_TB+Baldock2011_JN"
##  [38] "Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2"
##  [39] "Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG"
##  [40] "Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6"
##  [41] "Dattilo2016"
##  [42] "Devoto2005_LQ"
##  [43] "Devoto2005_PP+Devoto2005_AP"
##  [44] "Devoto2005_LT+Devoto2005_LH"
##  [45] "Devoto2005_VT"
##  [46] "Devoto2005_LL+Devoto2005_CT"
##  [47] "Dupont2009_IsenBjerg+Dupont2009_Other"
##  [48] "Freitas2006"
##  [49] "Gibson2006_GA1"
##  [50] "Gibson2006_GA2"
##  [51] "Gibson2006_SG"
##  [52] "Gibson2006_TA1"
##  [53] "Gibson2006_TA2"
##  [54] "Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty"
##  [55] "LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA"
##  [56] "LemusJimenez2003"
##  [57] "Lundgren2005"
##  [58] "Marrero2013"
##  [59] "MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant"
##  [60] "Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat"
##  [61] "Pinheiro2008"
##  [62] "Trojelsgaard2015_El Hierro"
##  [63] "Trojelsgaard2015_La Gomera"
##  [64] "Trojelsgaard2015_Gran Canaria"
##  [65] "Trojelsgaard2015_Fuerteventura"
##  [66] "Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia"
##  [67] "Trojelsgaard2015_Western Sahara"
##  [68] "Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich"
##  [69] "Zackenberg"
##  [70] "Yoshihara2008"
##  [71] "Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha"
##  [72] "Kato1993"
##  [73] "KatoMiura1996"
##  [74] "Kakutani1990"
##  [75] "Inoue1990"
##  [76] "Fragoso_RA1+Fragoso_RD2"
##  [77] "Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3"
##  [78] "PopicThesis"
##  [79] "Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS"
##  [80] "Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig"
##  [81] "Pornon2017"
##  [82] "Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10"
##  [83] "Orford_B6+Orford_B7+Orford_B8+Orford_B9"
##  [84] "Blumel2016"
##  [85] "Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B"
##  [86] "Kantsa2018"
##  [87] "Souza_cerrado"
##  [88] "Souza_chaco"
##  [89] "Souza_pantanal"
##  [90] "Souza_vereda"
##  [91] "Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17"
##  [92] "Robinson2018"
##  [93] "Bennett2018"
##  [94] "Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone"
##  [95] "Adedoja2019"
##  [96] "CordenizPicanco2018_NatFor"
##  [97] "CordenizPicanco2018_NatVeg"
##  [98] "CordenizPicanco2018_ExoFor"
##  [99] "CordenizPicanco2018_SemiPast"
## [100] "CordenizPicanco2018_IntPast"
## [101] "Benadi2018"
## [102] "Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma"
## [103] "Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub"
## [104] "Oleques2019"
## [105] "Biella2019"
## [106] "Jolls2019"
## [107] "Nel2017"
## [108] "Villalobos2019"
## [109] "LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre"
## [110] "Traveset2013_Fernandina"
## [111] "Traveset2013_Pinta"
## [112] "Traveset2013_Santiago"
## [113] "Traveset2013_SantaCruz"
## [114] "Traveset2013_SanCristobal"
## [115] "Ferrero2013"
## [116] "Simanonok2014"
## [117] "Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8"
## [118] "Neli2014"
## [119] "Sritongchuay2019_near+Sritongchuay2019_far"
## [120] "Baldock2019_Bristol"
## [121] "Baldock2019_Edinburgh"
## [122] "Baldock2019_Leeds"
## [123] "Baldock2019_Reading"

Et voici donc les valeurs numériques pour les \(\alpha\) (paramètres de connectivité).

Pour la collection 1: \[\begin{bmatrix} 0.77 &0.91 &0.64 &0.73 &0.09 &0.34 &0.98 &0.9 &0.41 \\0.63 &0.09 &0.15 &0.94 &0.56 &0.6 &0.25 &0.24 &0.05 \\0.59 &0.73 &0.19 &0.38 &0.04 &0.09 &0.51 &0.22 &0.46 \\0.07 &0.19 &0.02 &0.73 &0.58 &0.2 &0.22 &0.04 &0.03 \\0.69 &0.13 &0.34 &0.03 &0.1 &0.01 &0.53 &0.33 &0.08 \\0.09 &0.02 &0.01 &0.27 &0.06 &0.12 &0.01 &0.04 &0 \\ \end{bmatrix}\]

Répartition dans les clusters selon la taxonomie

## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
Pollinators repartition for the rho model regarding taxonomy

Pollinators repartition for the rho model regarding taxonomy

Pollinators repartition for the rho model regarding taxonomy

Pollinators repartition for the rho model regarding taxonomy

Plants repartition for the rho model regarding taxonomy

Plants repartition for the rho model regarding taxonomy

## Warning: Removed 9 rows containing missing values (`geom_bar()`).
Plants repartition for the rho model regarding taxonomy

Plants repartition for the rho model regarding taxonomy

Clustering avec le modèle pirho

Avec le modèle pirho nous obtenons les 15 collections suivantes:

collection_id net_id
1 arroyo1982_1+arroyo1982_2+arroyo3
1 dupont2003
1 petanidou1991
1 Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D
1 Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D
1 Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty
1 Pinheiro2008
1 Souza_pantanal
1 Robinson2018
1 Jolls2019
1 Traveset2013_Fernandina
1 Baldock2019_Leeds
1 Baldock2019_Reading
collection_id net_id
2 Benadi2013_3(1340m)
2 Trojelsgaard2015_La Gomera
2 CordenizPicanco2018_SemiPast
collection_id net_id
3 Kato2000
3 Freitas2006
3 Inoue1990
3 Souza_cerrado
3 Adedoja2019
3 Baldock2019_Bristol
collection_id net_id
4 Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D
4 LemusJimenez2003
collection_id net_id
5 inouye1988
5 Junker2013
5 Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat
5 Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha
5 Kakutani1990
5 Fragoso_RA1+Fragoso_RD2
5 Souza_chaco
5 Oleques2019
collection_id net_id
6 medan2002ld
6 small1976
6 smith-ramirez2005
6 Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)
6 Shay2016
6 Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D
6 Lundgren2005
6 Zackenberg
6 Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig
6 Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B
6 Bennett2018
6 CordenizPicanco2018_NatFor
6 CordenizPicanco2018_ExoFor
6 CordenizPicanco2018_IntPast
6 Benadi2018
6 Villalobos2019
6 Traveset2013_Santiago
6 Traveset2013_SantaCruz
6 Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8
6 Sritongchuay2019_near+Sritongchuay2019_far
collection_id net_id
7 medan2002rb
7 olensen2002flo
7 vazquez2002
7 Trojelsgaard2015_Gran Canaria
7 Trojelsgaard2015_Western Sahara
7 LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre
collection_id net_id
8 Weiner2011
8 Kaiser_control+Kaiser_restored
8 Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan
8 Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres
8 Fang2012
8 Gibson2006_SG
8 Gibson2006_TA1
8 Trojelsgaard2015_Fuerteventura
8 Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS
8 Biella2019
8 Nel2017
8 Ferrero2013
8 Neli2014
collection_id net_id
9 eberling1999
9 ramirez1992
9 Struck1994
9 Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr
9 Devoto2005_PP+Devoto2005_AP
9 Devoto2005_VT
9 Gibson2006_TA2
9 MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant
9 Yoshihara2008
9 PopicThesis
9 Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10
9 Souza_vereda
9 Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone
9 Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma
collection_id net_id
10 herrera1988
10 Burkle2013
10 bartomeus2008
10 Olito-Fox2014
10 Benadi2013_4(1700m)+Benadi2013_5(1800m)
10 Baldock2011_TB+Baldock2011_JN
10 Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG
10 Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6
10 Devoto2005_LQ
10 Devoto2005_LT+Devoto2005_LH
10 Devoto2005_LL+Devoto2005_CT
10 Dupont2009_IsenBjerg+Dupont2009_Other
10 Gibson2006_GA1
10 LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA
10 Marrero2013
10 Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia
10 Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich
10 Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3
10 Pornon2017
10 Orford_B6+Orford_B7+Orford_B8+Orford_B9
10 Blumel2016
10 Kantsa2018
10 Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17
10 CordenizPicanco2018_NatVeg
10 Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub
10 Traveset2013_Pinta
10 Traveset2013_SanCristobal
10 Simanonok2014
10 Baldock2019_Edinburgh
collection_id net_id
11 kato1990
11 ramirez1989
11 Kato1993
collection_id net_id
12 Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2
12 Dattilo2016
12 KatoMiura1996
collection_id net_id
13 olensen2002aig
collection_id net_id
14 Trojelsgaard2015_El Hierro
collection_id net_id
15 Gibson2006_GA2

Une fois le modèle de collection appliqué nous obtenons les structures suivantes:

##
## Pour la collection 1 du modèle *pirho*

##  [1] "arroyo1982_1+arroyo1982_2+arroyo3"
##  [2] "dupont2003"
##  [3] "petanidou1991"
##  [4] "Aizen2008_Challhuaco_U+Aizen2008_Challhuaco_D"
##  [5] "Aizen2008_Llao-llao_U+Aizen2008_Llao-llao_D"
##  [6] "Jedrzejewska2013_Ochata+Jedrzejewska2013_Kabaty"
##  [7] "Pinheiro2008"
##  [8] "Souza_pantanal"
##  [9] "Robinson2018"
## [10] "Jolls2019"
## [11] "Traveset2013_Fernandina"
## [12] "Baldock2019_Leeds"
## [13] "Baldock2019_Reading"
##
## Pour la collection 2 du modèle *pirho*

## [1] "Benadi2013_3(1340m)"          "Trojelsgaard2015_La Gomera"
## [3] "CordenizPicanco2018_SemiPast"
##
## Pour la collection 3 du modèle *pirho*

## [1] "Kato2000"            "Freitas2006"         "Inoue1990"
## [4] "Souza_cerrado"       "Adedoja2019"         "Baldock2019_Bristol"
##
## Pour la collection 4 du modèle *pirho*

## [1] "Aizen2008_Puerto Blest_U+Aizen2008_Puerto Blest_D"
## [2] "LemusJimenez2003"
##
## Pour la collection 5 du modèle *pirho*

## [1] "inouye1988"
## [2] "Junker2013"
## [3] "Kehinde2014_Joostenberg_Conv+Kehinde2014_Joostenberg_Org+Kehinde2014_Joostenberg_Nat+Kehinde2014_Laibach_Conv+Kehinde2014_Laibach_Org+Kehinde2014_Laibach_Nat+Kehinde2014_Spier_Conv+Kehinde2014_Spier_Nat"
## [4] "Watts2016_Chicon+Watts2016_Mantanay+Watts2016_Choquebamba+Watts2016_Huaran+Watts2016_Piscacucho+Watts2016_Poques+Watts2016_Pumamarca+Watts2016_Tiaparo+Watts2016_Yanacocha"
## [5] "Kakutani1990"
## [6] "Fragoso_RA1+Fragoso_RD2"
## [7] "Souza_chaco"
## [8] "Oleques2019"
##
## Pour la collection 6 du modèle *pirho*

##  [1] "medan2002ld"
##  [2] "small1976"
##  [3] "smith-ramirez2005"
##  [4] "Benadi2013_1(950m)+Benadi2013_2(1170m)+Benadi2013_6(2020m)"
##  [5] "Shay2016"
##  [6] "Aizen2008_Cerro Otto_U+Aizen2008_Cerro Otto_D"
##  [7] "Lundgren2005"
##  [8] "Zackenberg"
##  [9] "Carstensen_Gigante+Carstensen_Paulino+Carstensen_Tinkerbell+Carstensen_Midway+Carstensen_Cedro+Carstensen_Elefante+Carstensen_Soizig"
## [10] "Welti_ID+Welti_K1B+Welti_K4A+Welti_4B+Welti_20B+Welti_20C+Welti_N1A+Welti_N1B+Welti_N4A+Welti_N4B+Welti_N20A+Welti_N20B"
## [11] "Bennett2018"
## [12] "CordenizPicanco2018_NatFor"
## [13] "CordenizPicanco2018_ExoFor"
## [14] "CordenizPicanco2018_IntPast"
## [15] "Benadi2018"
## [16] "Villalobos2019"
## [17] "Traveset2013_Santiago"
## [18] "Traveset2013_SantaCruz"
## [19] "Son2019_a1+Son2019_a2+Son2019_a3+Son2019_a4+Son2019_a5+Son2019_a6+Son2019_a7+Son2019_a8+Son2019_F1+Son2019_F2+Son2019_F3+Son2019_F4+Son2019_F5+Son2019_F6+Son2019_F7+Son2019_F8"
## [20] "Sritongchuay2019_near+Sritongchuay2019_far"
##
## Pour la collection 7 du modèle *pirho*

## [1] "medan2002rb"
## [2] "olensen2002flo"
## [3] "vazquez2002"
## [4] "Trojelsgaard2015_Gran Canaria"
## [5] "Trojelsgaard2015_Western Sahara"
## [6] "LaraRomero2019_blanca+LaraRomero2019_rajada+LaraRomero2019_refugio+LaraRomero2019_torre"
##
## Pour la collection 8 du modèle *pirho*

##  [1] "Weiner2011"
##  [2] "Kaiser_control+Kaiser_restored"
##  [3] "Gilarranz2014_amarante+Gilarranz2014_barrosa+Gilarranz2014_cincocerros+Gilarranz2014_difuntito+Gilarranz2014_difuntos+Gilarranz2014_elmorro+Gilarranz2014_labrava+Gilarranz2014_lachata+Gilarranz2014_lapaja+Gilarranz2014_piedraalta+Gilarranz2014_vigilancia+Gilarranz2014_volcan"
##  [4] "Kaiser-Bunbury2017_Bernica+Kaiser-Bunbury2017_Casse-dent+Kaiser-Bunbury2017_Copolia+Kaiser-Bunbury2017_La-Reserve+Kaiser-Bunbury2017_Rosebelle+Kaiser-Bunbury2017_Salazie+Kaiser-Bunbury2017_Tea-Plantation+Kaiser-Bunbury2017_Trois-Freres"
##  [5] "Fang2012"
##  [6] "Gibson2006_SG"
##  [7] "Gibson2006_TA1"
##  [8] "Trojelsgaard2015_Fuerteventura"
##  [9] "Pfeiffer_CNE+Pfeiffer_CNM+Pfeiffer_CNT+Pfeiffer_CPB+Pfeiffer_CPM+Pfeiffer_CPR+Pfeiffer_CPS+Pfeiffer_M2+Pfeiffer_RP1+Pfeiffer_RP2+Pfeiffer_LM+Pfeiffer_LO+Pfeiffer_BD+Pfeiffer_BH+Pfeiffer_BS"
## [10] "Biella2019"
## [11] "Nel2017"
## [12] "Ferrero2013"
## [13] "Neli2014"
##
## Pour la collection 9 du modèle *pirho*

##  [1] "eberling1999"
##  [2] "ramirez1992"
##  [3] "Struck1994"
##  [4] "Albrecht2010_49yr+Albrecht2010_63yr+Albrecht2010_84yr+Albrecht2010_109yr+Albrecht2010_130yr"
##  [5] "Devoto2005_PP+Devoto2005_AP"
##  [6] "Devoto2005_VT"
##  [7] "Gibson2006_TA2"
##  [8] "MonteroCastano2017_Albufera+MonteroCastano2017_Llimpa+MonteroCastano2017_Tirant"
##  [9] "Yoshihara2008"
## [10] "PopicThesis"
## [11] "Orford_B1+Orford_B2+Orford_B3+Orford_B4+Orford_B5+Orford_B10"
## [12] "Souza_vereda"
## [13] "Adedoja2018b_baseZone+Adedoja2018b_MidZone+Adedoja2018b_HighZone+Adedoja2018b_PeakZone"
## [14] "Hackett2019_NZ_salt_marsh+Hackett2019_NZ_sand_dune+Hackett2019_NZ_scrub_coprosma"
##
## Pour la collection 10 du modèle *pirho*

##  [1] "herrera1988"
##  [2] "Burkle2013"
##  [3] "bartomeus2008"
##  [4] "Olito-Fox2014"
##  [5] "Benadi2013_4(1700m)+Benadi2013_5(1800m)"
##  [6] "Baldock2011_TB+Baldock2011_JN"
##  [7] "Chamberlain_HLU+Chamberlain_HLG+Chamberlain_OKU+Chamberlain_OKG+Chamberlain_WLU+Chamberlain_WLG+Chamberlain_SOU+Chamberlain_SOG"
##  [8] "Chamberlain_Site1+Chamberlain_Site2+Chamberlain_Site3+Chamberlain_Site4+Chamberlain_Site5+Chamberlain_Site6"
##  [9] "Devoto2005_LQ"
## [10] "Devoto2005_LT+Devoto2005_LH"
## [11] "Devoto2005_LL+Devoto2005_CT"
## [12] "Dupont2009_IsenBjerg+Dupont2009_Other"
## [13] "Gibson2006_GA1"
## [14] "LaraRomero2016_pe?alara_EP+LaraRomero2016_pe?alara_PA+LaraRomero2016_nevero_EP+LaraRomero2016_nevero_PA"
## [15] "Marrero2013"
## [16] "Trojelsgaard2015_Tenerife Teno Bajo+Trojelsgaard2015_Tenerife Fasnia"
## [17] "Vanbergen2013_balfarm+Vanbergen2013_bridgend+Vanbergen2013_dalhaikie+Vanbergen2013_netherton+Vanbergen2013_backhill+Vanbergen2013_corntulloch+Vanbergen2013_allancreich"
## [18] "Fragoso_RA2+Fragoso_RA3+Fragoso_RD1+Fragoso_RD3"
## [19] "Pornon2017"
## [20] "Orford_B6+Orford_B7+Orford_B8+Orford_B9"
## [21] "Blumel2016"
## [22] "Kantsa2018"
## [23] "Grass2013_1+Grass2013_2+Grass2013_3+Grass2013_4+Grass2013_5+Grass2013_6+Grass2013_7+Grass2013_8+Grass2013_9+Grass2013_10+Grass2013_11+Grass2013_12+Grass2013_13+Grass2013_14+Grass2013_15+Grass2013_16+Grass2013_17"
## [24] "CordenizPicanco2018_NatVeg"
## [25] "Hackett2019_UK_sand_dune+Hackett2019_UK_grassland+Hackett2019_UK_heathland+Hackett2019_UK_woodland+Hackett2019_UK_salt_marsh+Hackett2019_UK_scrub"
## [26] "Traveset2013_Pinta"
## [27] "Traveset2013_SanCristobal"
## [28] "Simanonok2014"
## [29] "Baldock2019_Edinburgh"
##
## Pour la collection 11 du modèle *pirho*

## [1] "kato1990"    "ramirez1989" "Kato1993"
##
## Pour la collection 12 du modèle *pirho*

## [1] "Chamberlain_cr1+Chamberlain_cr2+Chamberlain_fs1+Chamberlain_fs2+Chamberlain_go1+Chamberlain_go2+Chamberlain_mm1+Chamberlain_mm2+Chamberlain_mz1+Chamberlain_mz2+Chamberlain_sm1+Chamberlain_sm2"
## [2] "Dattilo2016"
## [3] "KatoMiura1996"
##
## Pour la collection 13 du modèle *pirho*

## [1] "olensen2002aig"
##
## Pour la collection 14 du modèle *pirho*

## [1] "Trojelsgaard2015_El Hierro"
##
## Pour la collection 15 du modèle *pirho*

## [1] "Gibson2006_GA2"

Et voici donc les valeurs numériques pour les \(\alpha\) (paramètres de connectivité).

Pour la collection 1 : \[\begin{bmatrix} 0.52 &0.6 &0.34 &0.1 &0.15 &0 &0.36 \\0.12 &0.93 &0.01 &0.01 &0 &0.61 &0.16 \\0.05 &0.31 &0.02 &0.08 &0.37 &0.27 &0.12 \\0.04 &0.05 &0.01 &0.38 &0.03 &0.01 &0.17 \\0 &0.03 &0.16 &0.11 &0.04 &0.01 &0.01 \\0.01 &0.22 &0.02 &0.01 &0.05 &0 &0.01 \\ \end{bmatrix}\] Pour la collection 2 : \[\begin{bmatrix} 0.66 &0.23 \\0.2 &0.05 \\ \end{bmatrix}\] Pour la collection 3 : \[\begin{bmatrix} 0.64 &0.32 &0.11 &0.53 &0.19 &0.05 \\0.47 &0.21 &0.02 &0.19 &0.07 &0.03 \\0.16 &0.05 &0.01 &0.07 &0.01 &0 \\ \end{bmatrix}\] Pour la collection 4 : \[\begin{bmatrix} 0.45 &0.07 \\0.22 &0.62 \\0.23 &0.04 \\ \end{bmatrix}\] Pour la collection 5 : \[\begin{bmatrix} 0.78 &0.43 &0.16 &0.56 \\0.29 &0.04 &0.22 &0.08 \\0.02 &0.12 &0.03 &0 \\ \end{bmatrix}\] Pour la collection 6 : \[\begin{bmatrix} 0.82 &0.63 &0.2 &0.74 \\0.34 &0.07 &0.41 &0.13 \\0.02 &0.16 &0.03 &0 \\ \end{bmatrix}\] Pour la collection 7 : \[\begin{bmatrix} 0.9 &0.46 &0.72 \\0.17 &0.37 &0.03 \\ \end{bmatrix}\] Pour la collection 8 : \[\begin{bmatrix} 0.66 &0.97 &0.72 &1 &0.13 &0.71 &0 \\0.99 &0.93 &0.84 &0.64 &0.5 &0.11 &0.17 \\0.71 &0.7 &0.28 &0.32 &0.13 &0.07 &0.05 \\0.96 &0.46 &0.75 &0.14 &0.39 &0.01 &0.07 \\0.62 &0.36 &0.09 &0.11 &0.04 &0.02 &0.01 \\0.62 &0.12 &0.43 &0.02 &0.17 &0 &0.02 \\0.33 &0.03 &0.14 &0 &0.03 &0 &0 \\ \end{bmatrix}\] Pour la collection 9 : \[\begin{bmatrix} 0.59 &0.17 &0.32 \\0.06 &0.15 &0.02 \\ \end{bmatrix}\] Pour la collection 10 : \[\begin{bmatrix} 0.91 &0.62 &0.3 &0.79 &0.44 \\0.15 &0.7 &0.32 &0.07 &0.36 \\0.15 &0.03 &0.16 &0.05 &0.01 \\ \end{bmatrix}\] Pour la collection 11 : \[\begin{bmatrix} 0.09 &0.36 &1 &0.12 &0.41 \\0.33 &0 &0.07 &0.46 &0.09 \\0 &0.01 &0.07 &0.14 &0 \\0.03 &0.16 &0.02 &0 &0 \\ \end{bmatrix}\] Pour la collection 12 : \[\begin{bmatrix} 0.68 &0.37 &0.12 \\0.41 &0.17 &0.04 \\0.19 &0.05 &0.01 \\ \end{bmatrix}\] Pour la collection 13 : \[\begin{bmatrix} 0.78 \\0.19 \\ \end{bmatrix}\] Pour la collection 14 : \[\begin{bmatrix} 0.44 &0.08 \\ \end{bmatrix}\] Pour la collection 15 : \[\begin{bmatrix} 0.42 &1 \\0.35 &0.01 \\ \end{bmatrix}\]

Répartition dans les clusters selon la taxonomie

## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
## `summarise()` has grouped output by 'col_id', 'taxo'. You can override using
## the `.groups` argument.
Pollinators repartition for the pirho model regarding taxonomy

Pollinators repartition for the pirho model regarding taxonomy

## Warning: Removed 24 rows containing missing values (`geom_bar()`).
Pollinators repartition for the pirho model regarding taxonomy

Pollinators repartition for the pirho model regarding taxonomy

Plants repartition for the pirho model regarding taxonomy

Plants repartition for the pirho model regarding taxonomy

## Warning: Removed 238 rows containing missing values (`geom_bar()`).
Plants repartition for the pirho model regarding taxonomy

Plants repartition for the pirho model regarding taxonomy